Strain identifier

BacDive ID: 24299

Type strain: Yes

Species: Bisgaardia hudsonensis

Strain Designation: 98-D-690B, M327/99/2, M327/99/2T

Strain history: CIP <- 1999, CCUG <- G. Foster, SAC, Inverness, Scotland, UK: strain M327/99/2T

NCBI tax ID(s): 109472 (species)

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General

@ref: 20927

BacDive-ID: 24299

DSM-Number: 28231

keywords: genome sequence, 16S sequence, Bacteria, microaerophile, mesophilic

description: Bisgaardia hudsonensis 98-D-690B is a microaerophile, mesophilic bacterium that was isolated from ringed seals, dead .

NCBI tax id

  • NCBI tax id: 109472
  • Matching level: species

strain history

@refhistory
20927<- CCUG <- G. Foster, SAC Veterinary Services, Inverness, United Kingdom; M327/99/2
119980CIP <- 1999, CCUG <- G. Foster, SAC, Inverness, Scotland, UK: strain M327/99/2T

doi: 10.13145/bacdive24299.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Gammaproteobacteria
  • order: Pasteurellales
  • family: Pasteurellaceae
  • genus: Bisgaardia
  • species: Bisgaardia hudsonensis
  • full scientific name: Bisgaardia hudsonensis Foster et al. 2011

@ref: 20927

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Pasteurellales

family: Pasteurellaceae

genus: Bisgaardia

species: Bisgaardia hudsonensis

full scientific name: Bisgaardia hudsonensis Foster et al. 2011

strain designation: 98-D-690B, M327/99/2, M327/99/2T

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram staincell shape
69480no95.236
6948099.982negative
119980nonegativerod-shaped

colony morphology

@reftype of hemolysisincubation period
20927gamma1-2 days
119980

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
20927COLUMBIA BLOOD MEDIUM (DSMZ Medium 693)yeshttps://mediadive.dsmz.de/medium/693Name: COLUMBIA BLOOD MEDIUM (DSMZ Medium 693) Composition: Defibrinated sheep blood 50.0 g/l Columbia agar base
39503MEDIUM 6 - Columbia agar with 10 % horse bloodyesDistilled water make up to (1000.000 ml);Columbia agar (39.000 g);Horseblood (100.000 ml)
119980CIP Medium 6yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=6

culture temp

@refgrowthtypetemperaturerange
20927positivegrowth37mesophilic
39503positivegrowth37mesophilic
55655positivegrowth37mesophilic
119980positivegrowth25-37mesophilic
119980nogrowth15psychrophilic
119980nogrowth41thermophilic
119980nogrowth45thermophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 55655
  • oxygen tolerance: microaerophile

spore formation

  • @ref: 69480
  • spore formation: no
  • confidence: 99.998

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6836925115malate-assimilation
6836917128adipate-assimilation
6836927689decanoate-assimilation
6836924265gluconate-assimilation
6836917306maltose-assimilation
6836959640N-acetylglucosamine-assimilation
6836916899D-mannitol-assimilation
6836916024D-mannose-assimilation
6836930849L-arabinose-assimilation
6836917634D-glucose-assimilation
683695291gelatin-hydrolysis
683694853esculin-hydrolysis
6836916199urea-hydrolysis
6836929016arginine-hydrolysis
6836917634D-glucose-fermentation
6836927897tryptophan-energy source
6836917632nitrate-reduction
1199804853esculin-hydrolysis
11998017234glucose+fermentation
119980606565hippurate-hydrolysis
11998017716lactose+fermentation
11998017632nitrate+reduction
11998016301nitrite-reduction
119980132112sodium thiosulfate-builds gas from
6838129016arginine-hydrolysis
6838116988D-ribose+builds acid from
6838116899D-mannitol-builds acid from
6838130911sorbitol-builds acid from
6838117716lactose-builds acid from
6838127082trehalose-builds acid from
6838116634raffinose-builds acid from
6838117992sucrose-builds acid from
6838130849L-arabinose-builds acid from
6838118333D-arabitol-builds acid from
6838140585alpha-cyclodextrin-builds acid from
68381606565hippurate-hydrolysis
6838128087glycogen-builds acid from
6838127941pullulan-builds acid from
6838117306maltose+builds acid from
6838128053melibiose-builds acid from
683816731melezitose-builds acid from
68381320055methyl beta-D-glucopyranoside-builds acid from
6838116443D-tagatose-builds acid from
6838116199urea-hydrolysis

antibiotic resistance

  • @ref: 119980
  • metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
  • is antibiotic: yes
  • is sensitive: yes
  • is resistant: no

metabolite production

@refChebi-IDmetaboliteproduction
6836935581indoleno
11998035581indoleno
6838115688acetoinno

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testindole testmethylred-test
6838115688acetoin-
6836935581indole-
11998015688acetoin-
11998017234glucose-

enzymes

@refvalueactivityec
20927catalase+1.11.1.6
20927cytochrome-c oxidase+1.9.3.1
68381urease-3.5.1.5
68381beta-mannosidase-3.2.1.25
68381glycyl tryptophan arylamidase-
68381N-acetyl-beta-glucosaminidase-3.2.1.52
68381pyrrolidonyl arylamidase-3.4.19.3
68381beta-galactosidase-3.2.1.23
68381Alanyl-Phenylalanyl-Proline arylamidase-
68381alkaline phosphatase+3.1.3.1
68381alpha-galactosidase-3.2.1.22
68381beta-glucuronidase-3.2.1.31
68381beta-glucosidase-3.2.1.21
68381arginine dihydrolase-3.5.3.6
68369gelatinase-
68369beta-glucosidase-3.2.1.21
68369urease-3.5.1.5
68369arginine dihydrolase-3.5.3.6
119980oxidase-
119980alcohol dehydrogenase-1.1.1.1
119980catalase+1.11.1.6
119980gamma-glutamyltransferase-2.3.2.2
119980lysine decarboxylase-4.1.1.18
119980ornithine decarboxylase-4.1.1.17
119980phenylalanine ammonia-lyase-4.3.1.24
119980tryptophan deaminase-
119980urease-3.5.1.5
68382alkaline phosphatase-3.1.3.1
68382esterase (C 4)-
68382esterase lipase (C 8)-
68382lipase (C 14)-
68382leucine arylamidase+3.4.11.1
68382valine arylamidase-
68382cystine arylamidase-3.4.11.3
68382trypsin-3.4.21.4
68382alpha-chymotrypsin-3.4.21.1
68382acid phosphatase+3.1.3.2
68382naphthol-AS-BI-phosphohydrolase-
68382alpha-galactosidase-3.2.1.22
68382beta-galactosidase-3.2.1.23
68382beta-glucuronidase-3.2.1.31
68382alpha-glucosidase-3.2.1.20
68382beta-glucosidase-3.2.1.21
68382N-acetyl-beta-glucosaminidase-3.2.1.52
68382alpha-mannosidase-3.2.1.24
68382alpha-fucosidase-3.2.1.51

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
119980-----+----+---------

API 20NE

@refNO3TRPGLU_ FermADH ArgUREESCGELPNPGGLU_ AssimARAMNEMANNAGMALGNTCAPADIMLTCITPAC
20927--------------------

API rID32STR

@refADH Argbeta GLUbeta GARbeta GURalpha GALPALRIBMANSORLACTRERAFSACLARADARLCDEXVPAPPAbeta GALPyrAbeta NAGGTAHIPGLYGPULMALMELMLZMbeta DGTAGbeta MANURE
20927-----++------------------+------

Isolation, sampling and environmental information

isolation

@refsample typehost speciesgeographic locationcountryorigin.countrycontinentsampling dateisolation date
20927ringed seals, dead (Phoca hispida)Phoca hispidaQuébec, Eastern Hudson BayCanadaCANNorth America
55655Ringed seal, dead (Phoca hispida)Québec,Eastern Hudson BayCanadaCANNorth America1998
119980Ringed seal, Phoca hispidaEastern Hudson bay, QuébecCanadaCANNorth America1998

isolation source categories

Cat1Cat2Cat3
#Host#Other#Decomposing animal
#Host#Mammals#Aquatic mammal

taxonmaps

  • @ref: 69479
  • File name: preview.99_76515.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_18;96_4890;97_41043;98_53496;99_76515&stattab=map
  • Last taxonomy: Bisgaardia hudsonensis subclade
  • 16S sequence: GU295084
  • Sequence Identity:
  • Total samples: 124
  • aquatic counts: 20
  • animal counts: 104

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
209272Risk group (German classification)
1199801Risk group (French classification)

Sequence information

16S sequences

  • @ref: 20927
  • description: Bisgaardia hudsonensis strain M327/99/2 16S ribosomal RNA (rrs) gene, partial sequence
  • accession: GU295084
  • length: 1363
  • database: ena
  • NCBI tax ID: 109472

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Bisgaardia hudsonensis M327/99/2GCA_013377195completencbi109472
66792Bisgaardia hudsonensis DSM 28231GCA_004345785scaffoldncbi109472
66792Bisgaardia hudsonensis strain DSM 28231109472.3wgspatric109472
66792Bisgaardia hudsonensis DSM 282312795385461draftimg109472

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno74no
motileno90.079no
flagellatedno96.163no
gram-positiveno98.053no
anaerobicno98.419yes
aerobicno91.263no
halophileyes61.865no
spore-formingno98.704no
thermophileno97.758yes
glucose-utilno58.451no
glucose-fermentno60.275yes

External links

@ref: 20927

culture collection no.: DSM 28231, CCUG 43067, NCTC 13475, CIP 106354

straininfo link

  • @ref: 88233
  • straininfo: 378825

literature

  • topic: Phylogeny
  • Pubmed-ID: 21296928
  • title: Proposal of Bisgaardia hudsonensis gen. nov., sp. nov. and an additional genomospecies, isolated from seals, as new members of the family Pasteurellaceae.
  • authors: Foster G, Higgins R, Leclair D, Korczak BM, Mikaelian I, Patterson IAP, Kuhnert P
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.028027-0
  • year: 2011
  • mesh: Animals, Bacterial Proteins/genetics, Base Composition, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Molecular Sequence Data, Pasteurellaceae/*classification/genetics/*isolation & purification/metabolism, Phylogeny, RNA, Ribosomal, 16S/genetics, Seals, Earless/*microbiology
  • topic2: Genetics

Reference

@idauthorstitledoi/urlcataloguejournalpubmed
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ10.1099/ijsem.0.004332
20927Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-28231Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 28231)
39503Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/18475
55655Curators of the CCUGhttps://www.ccug.se/strain?id=43067Culture Collection University of Gothenburg (CCUG) (CCUG 43067)
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
66794Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar SchomburgBRENDA, the ELIXIR core data resource in 2021: new developments and updates10.1093/nar/gkaa1025Nucleic Acids Res. 49: D498-D508 202033211880
68369Automatically annotated from API 20NE
68381Automatically annotated from API rID32STR
68382Automatically annotated from API zym
69479João F Matias Rodrigues, Janko Tackmann,Gregor Rot, Thomas SB Schmidt, Lukas Malfertheiner, Mihai Danaila,Marija Dmitrijeva, Daniela Gaio, Nicolas Näpflin and Christian von Mering. University of Zurich.MicrobeAtlas 1.0 betahttps://microbeatlas.org/
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
88233Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.StrainInfo: A central database for resolving microbial strain identifiers10.60712/SI-ID378825.1
119980Curators of the CIPhttps://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20106354Collection of Institut Pasteur (CIP 106354)